AFNI Message Board

Dear AFNI users-

We are very pleased to announce that the new AFNI Message Board framework is up! Please join us at:

https://discuss.afni.nimh.nih.gov

Existing user accounts have been migrated, so returning users can login by requesting a password reset. New users can create accounts, as well, through a standard account creation process. Please note that these setup emails might initially go to spam folders (esp. for NIH users!), so please check those locations in the beginning.

The current Message Board discussion threads have been migrated to the new framework. The current Message Board will remain visible, but read-only, for a little while.

Sincerely, AFNI HQ

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_durai_
February 24, 2014 10:08AM
Hi AFNI experts,

I tried using align_epi_anat to align my skull stripped T1 to DWI b0 image. I have used this command in the past to align two non-time series datasets with just 1 subbrik each. But this time it throws a 3dTstat error....

align_epi_anat -dset1 dwi.nii.gz -dset2 T1_noskull.nii -dset2to1 -dset1_strip None -dset2_strip None -suffix _mp2diff -AddEdge

#++ align_epi_anat version: 1.44
#++ turning off deobliquing tshift, volume registration, resampling
#++ turning off deobliquing tshift, volume registration, resampling
#Script is running:
3dAttribute DELTA /home/owner/data_bkup/dti_repeat/mp2dwi/mp_ns_t3d.nii
#Script is running:
3dAttribute DELTA /home/owner/data_bkup/dti_repeat/mp2dwi/mp_ns_t3d.nii
#Script is running (command trimmed):
3dAttribute DELTA ./nodif_brain.nii.gz
#++ Multi-cost is lpa
#++ Removing all the temporary files
#Script is running:
\rm -f ./__tt_mp_ns_t3d.nii*
#Script is running:
\rm -f ./__tt_nodif_brain.nii.gz*
#Script is running (command trimmed):
3dcopy ./nodif_brain.nii.gz ./__tt_nodif_brain.nii.gz
++ 3dcopy: AFNI version=AFNI_2011_12_21_1014 (Jan 31 2014) [64-bit]
#++ using 0th sub-brick because only one found
#Script is running (command trimmed):
3dbucket -prefix ./__tt_mp_ns_t3d.nii_ts /home/owner/data_bkup/dti_repeat/mp2dwi/mp_ns_t3d.nii'[0]'
++ 3dbucket: AFNI version=AFNI_2011_12_21_1014 (Jan 31 2014) [64-bit]
** ERROR: Could not 3dTstat epi
#++ removing skull or area outside brain
** ERROR - script failed
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Subject Author Posted

Align T1 to DWI

_durai_ February 24, 2014 10:08AM

Re: Align T1 to DWI

Daniel Glen February 24, 2014 11:53AM

Re: Align T1 to DWI

Fred February 25, 2014 12:23AM

Re: Align T1 to DWI

_durai_ February 25, 2014 01:49PM